Can't say anything about 3.0 compatibility, but I doubt there would be any issues. 2.0, on other hand...

The problem is that you cannot install NPatch, required by the most recent versions of Mental Omega 2.0 if you are running C&C Ultimate Collection version of Yuri's Revenge. This is because the game executable has been tweaked to allow running it with no disc required, and NPatch can only be installed if the game executable is mostly untouched.